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  • MEGAN5 license and command line

    Hello,

    I recently installed MEGAN5 to my linux server to analyze my NGS data. I have some questions about the license and file input/output.

    I got license file from email and saved it as "MEGAN5-academic-license.txt" under ~/megan. But I am not sure how I can active the license via option -L in command line. Below are commands I tried:

    Code:
    $ MEGAN -g -E -L ~/megan/MEGAN5-academic-license.txt
    MEGAN fatal error:
    java.awt.HeadlessException:
    No X11 DISPLAY variable was set, but this program performed an operation which requires it.

    No X11 DISPLAY variable was set, but this program performed an operation which requires it.

    Code:
    $xvfb-run --auto-servernum --server-num=1 MEGAN -g false -L ~/megan/MEGAN5-academic-license.txt
    No output

    Would you please help to correct the command? And, should I involve the license file every time I use MEGAN5 or it has a way to active only once?

    Another question is, I have a 2G blastn output file which generated from a illumina sequencing. I tried to import it and get a rma file. But my command have no output after 26 hours running. I guess there must be something wrong with the command. Here are two files I used:

    commands.txt
    -----------------

    load treeFile='/home/megan/class/resources/ncbi.map';
    load treeFile='/home/megan/class/resources/ncbi.tre';
    load taxGIFile='/home/megan/gi_taxid-March2015X.bin';
    import blastfile='/home/blast/blast_map/blastn_veroall_tab7' fastaFile='/home/blast/blast_map/Veroall.fasta' meganfile='veroal.rma' blastFormat=BlastTAB;
    quit;

    job_megan
    -------------

    #!/bin/bash
    #PBS -l nodes=1pn=12
    #PBS -l mem=20gb
    #PBS -l walltime=30:00:00
    #PBS -m abe
    #PBS -q default
    #PBS -N megan
    cd ${PBS_O_WORKDIR}
    xvfb-run --auto-servernum --server-num=1 MEGAN -g false -v tree -L /home/megan/MEGAN5-academic-license.txt -c commands.txt

    I use qsub system to submit the job, but no feedback.

    Would you please help to correct it? I appreciate your help.

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